A Multilocus Sequence Analysis Scheme for Phylogeny of Thioclava Bacteria and Proposal of Two Novel Species
Abstract
A multilfocus sequence analysis (MLSA) was established and performed on the genus Thioclava, including 23 strains isolated from diverse marine environments, with the aim of better differentiation of strains and species within this genus. The study was based on sequences of 16S rRNA gene and five protein-coding housekeeping genes, gyrB, rpoD, dnaK, trpB, and recA. In contrast to 16S rRNA gene-based tree that was unable to separate some species within this genus, each tree based on a single housekeeping gene and MLSA had consistently defined seven clades, corresponding to the five established ones and two novel ones. The digital DNA-DNA hybridization and average nucleotide identity analyses based on genome sequences of the representative strains reconfirmed the validity of the MLSA analysis, and recommended a 97.3% MLSA similarity as the soft species threshold and nine species representing the five known and four putative novel species. Two of the four new species were identified as Thioclava sediminum sp. nov. (type strain TAW-CT134T = MCCC 1A10143T = LMG 29615T ) and Thioclava marinus sp. nov. (type strain 11.10-0-13T = MCCC 1A03502T = LMG 29618T ) by using a polyphasic taxonomic approach. Taken together, the newly established MLSA in this study first described themore »
- Authors:
-
- Harbin Inst. of Technology (China). School of Municipal and Environmental Engineering; Key Laboratory of Marine Genetic Resources of Fujian Province, Xiamen (China). State Key Laboratory Breeding Base of Marine Genetic Resources. Key Laboratory of Marine Genetic Resources. Third Institute of Oceanography. State Oceanic Administration. Collaborative Innovation Center for Exploitation and Utilization of Marine Biological Resources
- Key Laboratory of Marine Genetic Resources of Fujian Province, Xiamen (China). State Key Laboratory Breeding Base of Marine Genetic Resources. Key Laboratory of Marine Genetic Resources. Third Institute of Oceanography. State Oceanic Administration. Collaborative Innovation Center for Exploitation and Utilization of Marine Biological Resources
- Harbin Inst. of Technology (China). School of Municipal and Environmental Engineering; Key Laboratory of Marine Genetic Resources of Fujian Province, Xiamen (China). State Key Laboratory Breeding Base of Marine Genetic Resources. Key Laboratory of Marine Genetic Resources. Third Institute of Oceanography. State Oceanic Administration. Collaborative Innovation Center for Exploitation and Utilization of Marine Biological Resources
- Publication Date:
- Research Org.:
- Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC)
- OSTI Identifier:
- 1628156
- Grant/Contract Number:
- AC02-05CH11231
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Frontiers in Microbiology
- Additional Journal Information:
- Journal Volume: 8; Journal ID: ISSN 1664-302X
- Publisher:
- Frontiers Research Foundation
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; Microbiology; Thioclava; MLSA; genome; dDDH; polyphasic taxonomy
Citation Formats
Liu, Yang, Lai, Qiliang, and Shao, Zongze. A Multilocus Sequence Analysis Scheme for Phylogeny of Thioclava Bacteria and Proposal of Two Novel Species. United States: N. p., 2017.
Web. doi:10.3389/fmicb.2017.01321.
Liu, Yang, Lai, Qiliang, & Shao, Zongze. A Multilocus Sequence Analysis Scheme for Phylogeny of Thioclava Bacteria and Proposal of Two Novel Species. United States. https://doi.org/10.3389/fmicb.2017.01321
Liu, Yang, Lai, Qiliang, and Shao, Zongze. Thu .
"A Multilocus Sequence Analysis Scheme for Phylogeny of Thioclava Bacteria and Proposal of Two Novel Species". United States. https://doi.org/10.3389/fmicb.2017.01321. https://www.osti.gov/servlets/purl/1628156.
@article{osti_1628156,
title = {A Multilocus Sequence Analysis Scheme for Phylogeny of Thioclava Bacteria and Proposal of Two Novel Species},
author = {Liu, Yang and Lai, Qiliang and Shao, Zongze},
abstractNote = {A multilfocus sequence analysis (MLSA) was established and performed on the genus Thioclava, including 23 strains isolated from diverse marine environments, with the aim of better differentiation of strains and species within this genus. The study was based on sequences of 16S rRNA gene and five protein-coding housekeeping genes, gyrB, rpoD, dnaK, trpB, and recA. In contrast to 16S rRNA gene-based tree that was unable to separate some species within this genus, each tree based on a single housekeeping gene and MLSA had consistently defined seven clades, corresponding to the five established ones and two novel ones. The digital DNA-DNA hybridization and average nucleotide identity analyses based on genome sequences of the representative strains reconfirmed the validity of the MLSA analysis, and recommended a 97.3% MLSA similarity as the soft species threshold and nine species representing the five known and four putative novel species. Two of the four new species were identified as Thioclava sediminum sp. nov. (type strain TAW-CT134T = MCCC 1A10143T = LMG 29615T ) and Thioclava marinus sp. nov. (type strain 11.10-0-13T = MCCC 1A03502T = LMG 29618T ) by using a polyphasic taxonomic approach. Taken together, the newly established MLSA in this study first described the variability and phylogeny of the genus Thioclava which contributes to better understanding its ecology and evolution.},
doi = {10.3389/fmicb.2017.01321},
journal = {Frontiers in Microbiology},
number = ,
volume = 8,
place = {United States},
year = {Thu Jul 13 00:00:00 EDT 2017},
month = {Thu Jul 13 00:00:00 EDT 2017}
}
Free Publicly Available Full Text
Publisher's Version of Record
Other availability
Search WorldCat to find libraries that may hold this journal
Save to My Library
You must Sign In or Create an Account in order to save documents to your library.
Works referenced in this record:
Diverse Mesorhizobium bacteria nodulate native Astragalus and Oxytropis in arctic and subarctic areas in Eurasia
journal, January 2017
- Ampomah, Osei Yaw; Mousavi, Seyed Abdollah; Lindström, Kristina
- Systematic and Applied Microbiology, Vol. 40, Issue 1
Computing prokaryotic gene ubiquity: Rescuing the core from extinction
journal, November 2004
- Charlebois, R. L.
- Genome Research, Vol. 14, Issue 12
jModelTest 2: more models, new heuristics and parallel computing
journal, July 2012
- Darriba, Diego; Taboada, Guillermo L.; Doallo, Ramón
- Nature Methods, Vol. 9, Issue 8
Understanding molecular identification and polyphasic taxonomic approaches for genetic relatedness and phylogenetic relationships of microorganisms
journal, August 2014
- Das, Surajit; Dash, Hirak R.; Mangwani, Neelam
- Journal of Microbiological Methods, Vol. 103
MUSCLE: multiple sequence alignment with high accuracy and high throughput
journal, March 2004
- Edgar, R. C.
- Nucleic Acids Research, Vol. 32, Issue 5, p. 1792-1797
Genomic and Genetic Diversity within the Pseudomonas fluorescens Complex
journal, February 2016
- Garrido-Sanz, Daniel; Meier-Kolthoff, Jan P.; Göker, Markus
- PLOS ONE, Vol. 11, Issue 2
Re-evaluating prokaryotic species
journal, August 2005
- Gevers, Dirk; Cohan, Frederick M.; Lawrence, Jeffrey G.
- Nature Reviews Microbiology, Vol. 3, Issue 9
Multilocus sequence analysis (MLSA) in prokaryotic taxonomy
journal, June 2015
- Glaeser, Stefanie P.; Kämpfer, Peter
- Systematic and Applied Microbiology, Vol. 38, Issue 4
Genome-Based Taxonomic Classification of Bacteroidetes
journal, December 2016
- Hahnke, Richard L.; Meier-Kolthoff, Jan P.; García-López, Marina
- Frontiers in Microbiology, Vol. 7
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
journal, January 2013
- Katoh, K.; Standley, D. M.
- Molecular Biology and Evolution, Vol. 30, Issue 4
Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes
journal, February 2014
- Kim, M.; Oh, H. -S.; Park, S. -C.
- INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 64, Issue Pt 2
Revisiting bacterial phylogeny: Natural and experimental evidence for horizontal gene transfer of 16S rRNA
journal, January 2013
- Kitahara, Kei; Miyazaki, Kentaro
- Mobile Genetic Elements, Vol. 3, Issue 1
Genomic insights that advance the species definition for prokaryotes
journal, February 2005
- Konstantinidis, K. T.; Tiedje, J. M.
- Proceedings of the National Academy of Sciences, Vol. 102, Issue 7
Thioclava atlantica sp. nov., isolated from deep sea sediment of the Atlantic Ocean
journal, August 2014
- Lai, Qiliang; Li, Shaoneng; Xu, Hongxiu
- Antonie van Leeuwenhoek, Vol. 106, Issue 5
Bacillus xiamenensis sp. nov., isolated from intestinal tract contents of a flathead mullet (Mugil cephalus)
journal, October 2013
- Lai, Qiliang; Liu, Yang; Shao, Zongze
- Antonie van Leeuwenhoek, Vol. 105, Issue 1
Multilocus Sequence Analysis for Assessment of Phylogenetic Diversity and Biogeography in Thalassospira Bacteria from Diverse Marine Environments
journal, September 2014
- Lai, Qiliang; Liu, Yang; Yuan, Jun
- PLoS ONE, Vol. 9, Issue 9
Multilocus Sequence Analysis for the Assessment of Phylogenetic Diversity and Biogeography in Hyphomonas Bacteria from Diverse Marine Environments
journal, July 2014
- Li, Chongping; Lai, Qiliang; Li, Guizhen
- PLoS ONE, Vol. 9, Issue 7
Phylogenetic Diversity of the Bacillus pumilus Group and the Marine Ecotype Revealed by Multilocus Sequence Analysis
journal, November 2013
- Liu, Yang; Lai, Qiliang; Dong, Chunming
- PLoS ONE, Vol. 8, Issue 11
Bacillus zhangzhouensis sp. nov. and Bacillus australimaris sp. nov.
journal, March 2016
- Liu, Yang; Lai, Qiliang; Du, Juan
- International Journal of Systematic and Evolutionary Microbiology, Vol. 66, Issue 3
Genetic diversity and population structure of the Bacillus cereus group bacteria from diverse marine environments
journal, April 2017
- Liu, Yang; Lai, Qiliang; Du, Juan
- Scientific Reports, Vol. 7, Issue 1
Thioclava indica sp. nov., isolated from surface seawater of the Indian Ocean
journal, November 2014
- Liu, Yang; Lai, Qiliang; Du, Juan
- Antonie van Leeuwenhoek, Vol. 107, Issue 1
Genomic insights into the taxonomic status of the Bacillus cereus group
journal, September 2015
- Liu, Yang; Lai, Qiliang; Göker, Markus
- Scientific Reports, Vol. 5, Issue 1
Thioclava nitratireducens sp. nov., isolated from surface seawater
journal, July 2017
- Liu, Yang; Lai, Qiliang; Shao, Zongze
- International Journal of Systematic and Evolutionary Microbiology, Vol. 67, Issue 7
Advantages of multilocus sequence analysis for taxonomic studies: a case study using 10 housekeeping genes in the genus Ensifer (including former Sinorhizobium)
journal, January 2008
- Martens, M.; Dawyndt, P.; Coopman, R.
- INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 58, Issue 1
RDP4: Detection and analysis of recombination patterns in virus genomes
journal, March 2015
- Martin, Darren P.; Murrell, Ben; Golden, Michael
- Virus Evolution, Vol. 1, Issue 1
Genome sequence-based species delimitation with confidence intervals and improved distance functions
journal, January 2013
- Meier-Kolthoff, Jan P.; Auch, Alexander F.; Klenk, Hans-Peter
- BMC Bioinformatics, Vol. 14, Issue 1
Phylogenomic Study of Burkholderia glathei-like Organisms, Proposal of 13 Novel Burkholderia Species and Emended Descriptions of Burkholderia sordidicola, Burkholderia zhejiangensis, and Burkholderia grimmiae
journal, June 2016
- Peeters, Charlotte; Meier-Kolthoff, Jan P.; Verheyde, Bart
- Frontiers in Microbiology, Vol. 7
Burkholderia pseudomultivorans sp. nov., a novel Burkholderia cepacia complex species from human respiratory samples and the rhizosphere
journal, October 2013
- Peeters, Charlotte; Zlosnik, James E. A.; Spilker, Theodore
- Systematic and Applied Microbiology, Vol. 36, Issue 7
Model Selection and Model Averaging in Phylogenetics: Advantages of Akaike Information Criterion and Bayesian Approaches Over Likelihood Ratio Tests
journal, October 2004
- Posada, David; Buckley, Thomas R.
- Systematic Biology, Vol. 53, Issue 5
Shifting the genomic gold standard for the prokaryotic species definition
journal, October 2009
- Richter, Michael; Rosselló-Móra, Ramon
- Proceedings of the National Academy of Sciences, Vol. 106, Issue 45
Taxonomic evaluation of the Streptomyces griseus clade using multilocus sequence analysis and DNA–DNA hybridization, with proposal to combine 29 species and three subspecies as 11 genomic species
journal, March 2010
- Rong, Xiaoying; Huang, Ying
- International Journal of Systematic and Evolutionary Microbiology, Vol. 60, Issue 3
Taxonomic evaluation of the Streptomyces hygroscopicus clade using multilocus sequence analysis and DNA–DNA hybridization, validating the MLSA scheme for systematics of the whole genus
journal, February 2012
- Rong, Xiaoying; Huang, Ying
- Systematic and Applied Microbiology, Vol. 35, Issue 1
Marine sediments microbes capable of electrode oxidation as a surrogate for lithotrophic insoluble substrate metabolism
journal, January 2015
- Rowe, Annette R.; Chellamuthu, Prithiviraj; Lam, Bonita
- Frontiers in Microbiology, Vol. 5
raxmlGUI: a graphical front-end for RAxML
journal, September 2011
- Silvestro, Daniele; Michalak, Ingo
- Organisms Diversity & Evolution, Vol. 12, Issue 4
Thioclava pacifica gen. nov., sp. nov., a novel facultatively autotrophic, marine, sulfur-oxidizing bacterium from a near-shore sulfidic hydrothermal area
journal, May 2005
- Sorokin, D. Yu.
- INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 55, Issue 3
Taxonomic Note: A Place for DNA-DNA Reassociation and 16S rRNA Sequence Analysis in the Present Species Definition in Bacteriology
journal, October 1994
- Stackebrandt, E.; Goebel, B. M.
- International Journal of Systematic and Evolutionary Microbiology, Vol. 44, Issue 4
MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods
journal, May 2011
- Tamura, K.; Peterson, D.; Peterson, N.
- Molecular Biology and Evolution, Vol. 28, Issue 10
Rare Events of Intragenus and Intraspecies Horizontal Transfer of the 16S rRNA Gene
journal, July 2015
- Tian, Ren-Mao; Cai, Lin; Zhang, Wei-Peng
- Genome Biology and Evolution, Vol. 7, Issue 8
Indigenous oil-degrading bacteria in crude oil-contaminated seawater of the Yellow sea, China
journal, May 2014
- Wang, Wanpeng; Zhong, Rongqiu; Shan, Dapeng
- Applied Microbiology and Biotechnology, Vol. 98, Issue 16
Report of the Ad Hoc Committee on Reconciliation of Approaches to Bacterial Systematics
journal, October 1987
- Moore, W. E. C.; Stackebrandt, E.; Kandler, O.
- International Journal of Systematic and Evolutionary Microbiology, Vol. 37, Issue 4
Extended Multilocus Sequence Analysis to Describe the Global Population Structure of the Genus Brucella: Phylogeography and Relationship to Biovars
journal, December 2016
- Whatmore, Adrian M.; Koylass, Mark S.; Muchowski, Jakub
- Frontiers in Microbiology, Vol. 7
DAMBE5: A Comprehensive Software Package for Data Analysis in Molecular Biology and Evolution
journal, April 2013
- Xia, Xuhua
- Molecular Biology and Evolution, Vol. 30, Issue 7
Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences
journal, August 2014
- Yarza, Pablo; Yilmaz, Pelin; Pruesse, Elmar
- Nature Reviews Microbiology, Vol. 12, Issue 9
Thioclava dalianensis sp. nov., isolated from surface seawater
journal, August 2013
- Zhang, Rongqiu; Lai, Qiliang; Wang, Wanpeng
- International Journal of Systematic and Evolutionary Microbiology, Vol. 63, Issue Pt_8
Evolutionary trees from DNA sequences: A maximum likelihood approach
journal, November 1981
- Felsenstein, Joseph
- Journal of Molecular Evolution, Vol. 17, Issue 6
Allobacillus salarius sp. nov., and Allobacillus saliphilus sp. nov., isolated from shrimp paste (ka-pi) in Thailand
journal, December 2021
- Yiamsombut, Supalurk; Kanchanasin, Pawina; Phongsopitanun, Wongsakorn
- Archives of Microbiology, Vol. 204, Issue 1
Indigenous oil-degrading bacteria in crude oil-contaminated seawater of the Yellow sea, China
journal, May 2014
- Wang, Wanpeng; Zhong, Rongqiu; Shan, Dapeng
- Applied Microbiology and Biotechnology, Vol. 98, Issue 16
A new species of Wallinia Pearse, 1920 (Digenea: Allocreadiidae), in Astyanax bimaculatus (Linnaeus, 1758) (Characidae) in Northeast Brazil, based on morphology and DNA sequences
journal, November 2020
- da Silva, Bruno Anderson Fernandes; Dias, Karina Gabriele Alves; da Silva, Reinaldo José
- Parasitology Research, Vol. 120, Issue 1
Bacillus xiamenensis sp. nov., isolated from intestinal tract contents of a flathead mullet (Mugil cephalus)
journal, October 2013
- Lai, Qiliang; Liu, Yang; Shao, Zongze
- Antonie van Leeuwenhoek, Vol. 105, Issue 1
Thioclava atlantica sp. nov., isolated from deep sea sediment of the Atlantic Ocean
journal, August 2014
- Lai, Qiliang; Li, Shaoneng; Xu, Hongxiu
- Antonie van Leeuwenhoek, Vol. 106, Issue 5
Thioclava indica sp. nov., isolated from surface seawater of the Indian Ocean
journal, November 2014
- Liu, Yang; Lai, Qiliang; Du, Juan
- Antonie van Leeuwenhoek, Vol. 107, Issue 1
Genome-wide identification, structural analysis and expression profiles of GRAS gene family in orchardgrass
journal, February 2020
- Xu, Xiaoheng; Feng, Guangyan; Huang, Linkai
- Molecular Biology Reports, Vol. 47, Issue 3
Biosorption of Cr(VI) by Halomonas sp. DK4, a halotolerant bacterium isolated from chrome electroplating sludge
journal, July 2019
- Kalola, Vidhi; Desai, Chirayu
- Environmental Science and Pollution Research, Vol. 27, Issue 22
raxmlGUI: a graphical front-end for RAxML
journal, September 2011
- Silvestro, Daniele; Michalak, Ingo
- Organisms Diversity & Evolution, Vol. 12, Issue 4
Understanding molecular identification and polyphasic taxonomic approaches for genetic relatedness and phylogenetic relationships of microorganisms
journal, August 2014
- Das, Surajit; Dash, Hirak R.; Mangwani, Neelam
- Journal of Microbiological Methods, Vol. 103
Burkholderia pseudomultivorans sp. nov., a novel Burkholderia cepacia complex species from human respiratory samples and the rhizosphere
journal, October 2013
- Peeters, Charlotte; Zlosnik, James E. A.; Spilker, Theodore
- Systematic and Applied Microbiology, Vol. 36, Issue 7
Multilocus sequence analysis (MLSA) in prokaryotic taxonomy
journal, June 2015
- Glaeser, Stefanie P.; Kämpfer, Peter
- Systematic and Applied Microbiology, Vol. 38, Issue 4
Diverse Mesorhizobium bacteria nodulate native Astragalus and Oxytropis in arctic and subarctic areas in Eurasia
journal, January 2017
- Ampomah, Osei Yaw; Mousavi, Seyed Abdollah; Lindström, Kristina
- Systematic and Applied Microbiology, Vol. 40, Issue 1
The Ka/Ks ratio: diagnosing the form of sequence evolution
journal, September 2002
- Hurst, Laurence D.
- Trends in Genetics, Vol. 18, Issue 9
Re-evaluating prokaryotic species
journal, August 2005
- Gevers, Dirk; Cohan, Frederick M.; Lawrence, Jeffrey G.
- Nature Reviews Microbiology, Vol. 3, Issue 9
Degradation of biological macromolecules supports uncultured microbial populations in Guaymas Basin hydrothermal sediments
journal, June 2021
- Pérez Castro, Sherlynette; Borton, Mikayla A.; Regan, Kathleen
- The ISME Journal, Vol. 15, Issue 12
Diversity of PKS and NRPS gene clusters between Streptomyces abyssomicinicus sp. nov. and its taxonomic neighbor
journal, December 2019
- Komaki, Hisayuki; Sakurai, Kenta; Hosoyama, Akira
- The Journal of Antibiotics, Vol. 73, Issue 3
Genetic diversity and population structure of the Bacillus cereus group bacteria from diverse marine environments
journal, April 2017
- Liu, Yang; Lai, Qiliang; Du, Juan
- Scientific Reports, Vol. 7, Issue 1
Microevolution of Campylobacter jejuni during long-term infection in an immunocompromised host
journal, June 2020
- Barker, Clare R.; Painset, Anaïs; Swift, Craig
- Scientific Reports, Vol. 10, Issue 1
Full-length transcriptome analysis of multiple organs and identification of adaptive genes and pathways in Mikania micrantha
journal, February 2022
- Ruan, Xiaoxian; Wang, Zhen; Su, Yingjuan
- Scientific Reports, Vol. 12, Issue 1
Shifting the genomic gold standard for the prokaryotic species definition
journal, October 2009
- Richter, Michael; Rosselló-Móra, Ramon
- Proceedings of the National Academy of Sciences, Vol. 106, Issue 45
Model Selection and Model Averaging in Phylogenetics: Advantages of Akaike Information Criterion and Bayesian Approaches Over Likelihood Ratio Tests
journal, October 2004
- Posada, David; Buckley, Thomas R.
- Systematic Biology, Vol. 53, Issue 5
Rare Events of Intragenus and Intraspecies Horizontal Transfer of the 16S rRNA Gene
journal, July 2015
- Tian, Ren-Mao; Cai, Lin; Zhang, Wei-Peng
- Genome Biology and Evolution, Vol. 7, Issue 8
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
journal, January 2013
- Katoh, K.; Standley, D. M.
- Molecular Biology and Evolution, Vol. 30, Issue 4
MUSCLE: multiple sequence alignment with high accuracy and high throughput
journal, March 2004
- Edgar, R. C.
- Nucleic Acids Research, Vol. 32, Issue 5, p. 1792-1797
RDP4: Detection and analysis of recombination patterns in virus genomes
journal, March 2015
- Martin, Darren P.; Murrell, Ben; Golden, Michael
- Virus Evolution, Vol. 1, Issue 1
Taxonomic Note: A Place for DNA-DNA Reassociation and 16S rRNA Sequence Analysis in the Present Species Definition in Bacteriology
journal, October 1994
- Stackebrandt, E.; Goebel, B. M.
- International Journal of Systematic and Evolutionary Microbiology, Vol. 44, Issue 4
Thioclava dalianensis sp. nov., isolated from surface seawater
journal, August 2013
- Zhang, Rongqiu; Lai, Qiliang; Wang, Wanpeng
- International Journal of Systematic and Evolutionary Microbiology, Vol. 63, Issue Pt_8
Thioclava pacifica gen. nov., sp. nov., a novel facultatively autotrophic, marine, sulfur-oxidizing bacterium from a near-shore sulfidic hydrothermal area
journal, May 2005
- Sorokin, D. Yu.
- INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 55, Issue 3
Bacillus zhangzhouensis sp. nov. and Bacillus australimaris sp. nov.
journal, March 2016
- Liu, Yang; Lai, Qiliang; Du, Juan
- International Journal of Systematic and Evolutionary Microbiology, Vol. 66, Issue 3
Computing prokaryotic gene ubiquity: Rescuing the core from extinction
journal, November 2004
- Charlebois, R. L.
- Genome Research, Vol. 14, Issue 12
DNA sequence-based analysis of the Pseudomonas species
journal, March 2010
- Mulet, Magdalena; Lalucat, Jorge; García-Valdés, Elena
- Environmental Microbiology
Multilocus Sequence Analysis of Xanthomonads Causing Bacterial Spot of Tomato and Pepper Plants Reveals Strains Generated by Recombination among Species and Recent Global Spread of Xanthomonas gardneri
journal, December 2014
- Timilsina, Sujan; Jibrin, Mustafa O.; Potnis, Neha
- Applied and Environmental Microbiology, Vol. 81, Issue 4
Multilocus Sequence Analysis and rpoB Sequencing of Mycobacterium abscessus (Sensu Lato) Strains
journal, November 2010
- Macheras, E.; Roux, A. -L.; Bastian, S.
- Journal of Clinical Microbiology, Vol. 49, Issue 2
Bioinformatic Genome Comparisons for Taxonomic and Phylogenetic Assignments Using Aeromonas as a Test Case
journal, November 2014
- Colston, Sophie M.; Fullmer, Matthew S.; Beka, Lidia
- mBio, Vol. 5, Issue 6
Genome sequence-based species delimitation with confidence intervals and improved distance functions
journal, January 2013
- Meier-Kolthoff, Jan P.; Auch, Alexander F.; Klenk, Hans-Peter
- BMC Bioinformatics, Vol. 14, Issue 1
Phylogenetic Diversity of the Bacillus pumilus Group and the Marine Ecotype Revealed by Multilocus Sequence Analysis
journal, November 2013
- Liu, Yang; Lai, Qiliang; Dong, Chunming
- PLoS ONE, Vol. 8, Issue 11
Multilocus Sequence Analysis for Assessment of Phylogenetic Diversity and Biogeography in Thalassospira Bacteria from Diverse Marine Environments
journal, September 2014
- Lai, Qiliang; Liu, Yang; Yuan, Jun
- PLoS ONE, Vol. 9, Issue 9
Genomic and Genetic Diversity within the Pseudomonas fluorescens Complex
journal, February 2016
- Garrido-Sanz, Daniel; Meier-Kolthoff, Jan P.; Göker, Markus
- PLOS ONE, Vol. 11, Issue 2
Marine sediments microbes capable of electrode oxidation as a surrogate for lithotrophic insoluble substrate metabolism
journal, January 2015
- Rowe, Annette R.; Chellamuthu, Prithiviraj; Lam, Bonita
- Frontiers in Microbiology, Vol. 5
Phylogenomic Study of Burkholderia glathei-like Organisms, Proposal of 13 Novel Burkholderia Species and Emended Descriptions of Burkholderia sordidicola, Burkholderia zhejiangensis, and Burkholderia grimmiae
journal, June 2016
- Peeters, Charlotte; Meier-Kolthoff, Jan P.; Verheyde, Bart
- Frontiers in Microbiology, Vol. 7
Genome-Based Taxonomic Classification of Bacteroidetes
journal, December 2016
- Hahnke, Richard L.; Meier-Kolthoff, Jan P.; García-López, Marina
- Frontiers in Microbiology, Vol. 7
Revisiting bacterial phylogeny: Natural and experimental evidence for horizontal gene transfer of 16S rRNA
journal, January 2013
- Kitahara, Kei; Miyazaki, Kentaro
- Mobile Genetic Elements, Vol. 3, Issue 1
Works referencing / citing this record:
Paracoccus aeridis sp. nov., an indole-producing bacterium isolated from the rhizosphere of an orchid, Aerides maculosa
journal, March 2020
- Rai, Anusha; N., Smita; G., Suresh
- International Journal of Systematic and Evolutionary Microbiology, Vol. 70, Issue 3
Identification and Classification for the Lactobacillus casei Group
journal, August 2018
- Huang, Chien-Hsun; Li, Shiao-Wen; Huang, Lina
- Frontiers in Microbiology, Vol. 9